Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 107 of 295
Found at i:34849171 original size:56 final size:56
Alignment explanation
Indices: 34849104--34849223 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
34849094 TATTAGTTTA
34849104 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
34849160 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
34849216 TTGCCCAT
1 TTGCCCAT
34849224 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:34851689 original size:19 final size:17
Alignment explanation
Indices: 34851643--34851684 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
34851633 TCTTCAGATA
34851643 AGCTTACTAAGCTATAT
1 AGCTTACTAAGCTATAT
34851660 AGCTTACTAAGCTATAT
1 AGCTTACTAAGCTATAT
34851677 AGCTTACT
1 AGCTTACT
34851685 CTAAGATTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (17 bp):
AGCTTACTAAGCTATAT
Found at i:34861440 original size:20 final size:21
Alignment explanation
Indices: 34861415--34861454 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
34861405 CTCTTGAAAT
34861415 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACATGCCCGTGTGGA
34861435 AGGGCAACATGCCCGTGTGG
1 AGGGCAACATGCCCGTGTGG
34861455 TCATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACATGCCCGTGTGGA
Found at i:34864915 original size:27 final size:27
Alignment explanation
Indices: 34864884--34864939 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
34864874 CTTTGTTACC
*
34864884 CAAGTCATGCCGAACCTACACCATGTT
1 CAAGTCATGCCAAACCTACACCATGTT
34864911 CAAGTCATGCCAAACCTACACCATGTT
1 CAAGTCATGCCAAACCTACACCATGTT
34864938 CA
1 CA
34864940 TATTAGCCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.34, G:0.12, T:0.21
Consensus pattern (27 bp):
CAAGTCATGCCAAACCTACACCATGTT
Found at i:34865925 original size:10 final size:10
Alignment explanation
Indices: 34865910--34865935 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
34865900 TGATCATGAG
34865910 ATTATGGTAA
1 ATTATGGTAA
34865920 ATTATGGTAA
1 ATTATGGTAA
34865930 ATTATG
1 ATTATG
34865936 TTATCTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (10 bp):
ATTATGGTAA
Found at i:34868911 original size:24 final size:24
Alignment explanation
Indices: 34868831--34868926 Score: 111
Period size: 24 Copynumber: 3.9 Consensus size: 24
34868821 CAAATATTAA
34868831 ATTATTTATATAATTTTATTGTAT
1 ATTATTTATATAATTTTATTGTAT
* * * *
34868855 ATTTTATTTTTAAAATTTGTATTTTCT
1 A--TTATTTATATAATTT-TATTGTAT
34868882 ATTATTTATATAATTTTATTGTAT
1 ATTATTTATATAATTTTATTGTAT
* *
34868906 ACTATTTGTATAATTTTATTG
1 ATTATTTATATAATTTTATTG
34868927 CATTTTCCGT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
24 26 0.44
25 13 0.22
26 13 0.22
27 7 0.12
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (24 bp):
ATTATTTATATAATTTTATTGTAT
Found at i:34877552 original size:21 final size:21
Alignment explanation
Indices: 34877510--34877554 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
34877500 TGCAGGGCTT
* **
34877510 ACATACCCGTTTGGTCCAAGG
1 ACATACCCGTGTGACCCAAGG
*
34877531 ACATACCCGTGTGACCCTAGG
1 ACATACCCGTGTGACCCAAGG
34877552 ACA
1 ACA
34877555 CGCTCATGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (21 bp):
ACATACCCGTGTGACCCAAGG
Found at i:34878785 original size:57 final size:56
Alignment explanation
Indices: 34878664--34878805 Score: 146
Period size: 57 Copynumber: 2.5 Consensus size: 56
34878654 TATTGTTTAA
*
34878664 CAAGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATACTCAGGGAAGCTCAAT
1 CAAGATTACCAGTCCAGGCTAAATCCTTAATATAACGTATACTCAGGGAA-CTCAAT
* * * * * *
34878721 TAGGATTATCAGTCCAGGCTAAA-CCTTAATCATAACGTATGCTCAGAGGTA-TTATAT
1 CAAGATTACCAGTCCAGGCTAAATCCTTAAT-ATAACGTATACTCAG-GGAACTCA-AT
*
34878778 CAAGATTACCCA-TCCGGGCTAAATCCTT
1 CAAGATTA-CCAGTCCAGGCTAAATCCTT
34878806 TTTATAACAA
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
56 8 0.12
57 52 0.75
58 9 0.13
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (56 bp):
CAAGATTACCAGTCCAGGCTAAATCCTTAATATAACGTATACTCAGGGAACTCAAT
Found at i:34883727 original size:28 final size:27
Alignment explanation
Indices: 34883703--34883765 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 27
34883693 TCGATATTAT
34883703 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGTCATTCTCAATAT-TC
34883731 GCACACTAAGTGTCATTCTCAATATTTC
1 GCACACTAAGTGTCATTCTCAATA-TTC
*
34883759 GTACACT
1 GCACACT
34883766 GAGTACCATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (27 bp):
GCACACTAAGTGTCATTCTCAATATTC
Found at i:34887506 original size:27 final size:27
Alignment explanation
Indices: 34887469--34887673 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
34887459 TAAATTGTAC
*
34887469 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34887496 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
34887523 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34887549 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
34887577 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34887604 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
34887632 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34887659 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34887674 GACTTAATAT
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34887530 original size:54 final size:54
Alignment explanation
Indices: 34887470--34887673 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
34887460 AAATTGTACA
* * *
34887470 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
34887524 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
**
34887578 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
34887633 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
34887674 GACTTAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:34895658 original size:27 final size:27
Alignment explanation
Indices: 34895621--34895825 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
34895611 TAAATTGTAC
*
34895621 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34895648 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
34895675 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34895701 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
34895729 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34895756 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
34895784 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34895811 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34895826 GACTTAATAT
Statistics
Matches: 152, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 0.84
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34895682 original size:54 final size:54
Alignment explanation
Indices: 34895622--34895825 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
34895612 AAATTGTACA
* * *
34895622 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
** ** * *
34895676 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTG
**
34895730 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTG
* * *
34895785 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
34895826 GACTTAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTG
Found at i:34907258 original size:40 final size:40
Alignment explanation
Indices: 34907181--34907437 Score: 419
Period size: 40 Copynumber: 6.5 Consensus size: 40
34907171 AAACCAAGTA
* * * *
34907181 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
34907220 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34907260 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34907300 CCTTCGGGACTTAGCCCGGATATAGTGACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34907340 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34907380 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34907420 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
34907438 ATTATCATCC
Statistics
Matches: 206, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.06
40 193 0.94
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34907613 original size:16 final size:16
Alignment explanation
Indices: 34907592--34907633 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
34907582 TTACTTAAAA
34907592 CATGATCTAATCGAAT
1 CATGATCTAATCGAAT
34907608 CATGATCTAATCGAAT
1 CATGATCTAATCGAAT
*
34907624 CATAATCTAA
1 CATGATCTAA
34907634 GATCCATTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (16 bp):
CATGATCTAATCGAAT
Found at i:34911593 original size:48 final size:48
Alignment explanation
Indices: 34911271--34911645 Score: 310
Period size: 47 Copynumber: 7.9 Consensus size: 48
34911261 CATAGGGTAT
* * *
34911271 AATGCCGATGCCATGTCCCAAACATGGTCTTACAGT-G-GCTCATCCATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-C-TC
* *
34911319 AA-GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACTTATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA--TCTC
** * * * *
34911368 CGTGCCGATGCCATGTCCTAGACATGGTCTTACACT-GACAC-CTTAT-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATCTC
* * * * *
34911414 ACGTACCGATACCATGTCCCAGACATGGTCTTACACT-G-ACACATCTC
1 A-ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* * * *
34911461 -GTAGCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TGCATATC
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTC
* * * * *
34911507 GAGGCCGATG-CATGTCCCAGACAT-GTCTTACTCGAGCTCTCGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* * *
34911553 AATGCCGATGCCATGTACCAGACATGGTCTTACACAAGCTCTCGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* *
34911601 AATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT
34911646 AATGTGGCCG
Statistics
Matches: 269, Mismatches: 41, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
44 10 0.04
45 19 0.07
46 55 0.20
47 80 0.30
48 63 0.23
49 8 0.03
50 33 0.12
51 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
Found at i:34911656 original size:48 final size:46
Alignment explanation
Indices: 34911269--34911685 Score: 299
Period size: 47 Copynumber: 8.9 Consensus size: 46
34911259 AACATAGGGT
* *
34911269 ATAA-TGCCGATGCCATGTCCCAAACATGGTCTTACAGTGGCTCATCC
1 ATAAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-C
*
34911316 ATCAAGT--CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC
1 AT-AAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
* * * * *
34911361 ACTTATCCGTGCCGATGCCATGTCCTAGACATGGTCTTACACTGACACCTT
1 A--TA--AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTC
* * * * *
34911412 ATACGTACCGATACCATGTCCCAGACATGGTCTTACACTGACACATC
1 ATAAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TC
* *
34911459 -T-CGTAGCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TGC
1 ATAAGT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-C
*
34911502 ATATCGAG-GCCGATG-CATGTCCCAGACAT-GTCTTACTC-GAGCTCTC
1 ATA---AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTG-GCTCTC
* * **
34911548 GTCTCAA-TGCCGATGCCATGTACCAGACATGGTCTTACACAAGCTCTC
1 --AT-AAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
* *
34911596 GTCTCAA-TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTC
1 --AT-AAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
* *
34911644 ATAATGTGGCCGATG-CAGGTCCTAGACAT-GTCTTACACTGGC
1 ATAA-GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
34911686 ACACAATTAA
Statistics
Matches: 309, Mismatches: 32, Indels: 59
0.77 0.08 0.15
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 13 0.04
45 22 0.07
46 62 0.20
47 101 0.33
48 71 0.23
49 4 0.01
50 31 0.10
51 3 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
ATAAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
Found at i:34912814 original size:10 final size:11
Alignment explanation
Indices: 34912799--34912827 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
34912789 GCTATAACAC
34912799 ATAAAATAAT-
1 ATAAAATAATA
34912809 ATAAAATAATA
1 ATAAAATAATA
34912820 ATAAAATA
1 ATAAAATA
34912828 GTTTCTCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:34915973 original size:43 final size:44
Alignment explanation
Indices: 34915895--34916059 Score: 164
Period size: 43 Copynumber: 3.8 Consensus size: 44
34915885 AAAATATACA
* *
34915895 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCA-AACATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAGAACATTG
*
34915938 ATGCC-ACTGTCCCAGACAG-GGTCTTTCACGAAATCAGATACA---
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAGA-ACATTG
* * * * * *
34915980 ATGTCAATGTCCCAGACATGGTCCTACACGTAAAACAGAA-GTTG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAATCAGAACATTG
34916024 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCA
34916060 AATACGAAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 20
0.73 0.11 0.15
Matches are distributed among these distances:
42 25 0.26
43 41 0.42
44 28 0.29
45 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAGAACATTG
Found at i:34916047 original size:86 final size:85
Alignment explanation
Indices: 34915890--34916064 Score: 212
Period size: 86 Copynumber: 2.0 Consensus size: 85
34915880 CAGAGAAAAT
* * * *
34915890 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATTGATGCCACTGTCCCAGAC
1 ATACAATGCCAACGTCCCAGACATGGTCCTACACGTAAACAAACATTGATGCCACTGTCCCAGAC
* *
34915955 AGGGTCTTTCACGAAATCAG
66 AGGGTCTTACACGAAATCAA
* * *
34915975 ATACAATGTCAATGTCCCAGACATGGTCCTACACGTAAAACAGAA-GTTGATGCCAAC-GTCCCA
1 ATACAATGCCAACGTCCCAGACATGGTCCTACACGT-AAACA-AACATTGATGCC-ACTGTCCCA
34916038 GAC-GTGGTCTTACACGAAATCAA
63 GACAG-GGTCTTACACGAAATCAA
34916061 ATAC
1 ATAC
34916065 GAAATCCTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
85 32 0.42
86 41 0.53
87 4 0.05
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAGACATGGTCCTACACGTAAACAAACATTGATGCCACTGTCCCAGAC
AGGGTCTTACACGAAATCAA
Found at i:34927469 original size:12 final size:12
Alignment explanation
Indices: 34927454--34927491 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
34927444 CTTTGATCCA
34927454 CTCCTCAAATCT
1 CTCCTCAAATCT
*
34927466 CTCCCCAAATCT
1 CTCCTCAAATCT
*
34927478 CTCCTCTAATCT
1 CTCCTCAAATCT
34927490 CT
1 CT
34927492 TCATCAGCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.34
Consensus pattern (12 bp):
CTCCTCAAATCT
Found at i:34937936 original size:47 final size:47
Alignment explanation
Indices: 34937819--34937951 Score: 180
Period size: 46 Copynumber: 2.9 Consensus size: 47
34937809 ATAATCTCAC
* * *
34937819 CCATAATGAACTTGGAACGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCGCAT
* * *
34937865 CCATAATGAACTCGGAACACAACTCAACAAGTTTGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCGCAT
*
34937911 CCATAGGTGAACTCGGAACGCAACTCAACGAGTTCGGATGC
1 CCATA-ATGAACTCGGAACGCAACTCAACGAGTTCGGATGC
34937952 CTCATAATTC
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
46 42 0.56
47 33 0.44
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.21
Consensus pattern (47 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCGCAT
Found at i:34945337 original size:43 final size:41
Alignment explanation
Indices: 34945247--34945338 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 41
34945237 TCCCTTATTC
* *
34945247 TAATAAACTACTAAAACATAAAAGAAAATAGTTTCCTAACTA
1 TAATAAACTACTAAAACATAAAAAAAAATAG-TTCCTAAATA
*
34945289 TAATAAACTACTAAAAGATAAAATAAAAATA-TTCCTAAAATA
1 TAATAAACTACTAAAACATAAAA-AAAAATAGTTCCT-AAATA
34945331 TGAATAAA
1 T-AATAAA
34945339 ACTTATCTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
41 5 0.11
42 27 0.61
43 12 0.27
ACGTcount: A:0.59, C:0.11, G:0.04, T:0.26
Consensus pattern (41 bp):
TAATAAACTACTAAAACATAAAAAAAAATAGTTCCTAAATA
Found at i:34945363 original size:19 final size:18
Alignment explanation
Indices: 34945341--34945380 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
34945331 TGAATAAAAC
34945341 TTATCTACCTAAATAATAT
1 TTATCTACCTAAATAA-AT
*
34945360 TTATCTACTTAAATAAAT
1 TTATCTACCTAAATAAAT
34945378 TTA
1 TTA
34945381 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:34946751 original size:36 final size:36
Alignment explanation
Indices: 34946704--34946775 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
34946694 ACGTTTCAAG
34946704 ATAATCTATCCCGTATGTTTAAGTATACCCTTTAGC
1 ATAATCTATCCCGTATGTTTAAGTATACCCTTTAGC
34946740 ATAATCTATCCCGTATGTTTAAGTATACCCTTTAGC
1 ATAATCTATCCCGTATGTTTAAGTATACCCTTTAGC
34946776 CACCAGCCGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (36 bp):
ATAATCTATCCCGTATGTTTAAGTATACCCTTTAGC
Found at i:34949784 original size:42 final size:42
Alignment explanation
Indices: 34949737--34949825 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
34949727 TCCTAATTGG
* * * *
34949737 GAAAATAGTTCCCTTATTCTAATAAACTATTAAAATATAAAA
1 GAAAATAGTTCCCTAACTCTAATAAACTACTAAAAGATAAAA
*
34949779 GAAAATAGTTTCCTAACTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTAACTCTAATAAACTACTAAAAGATAAAA
*
34949821 TAAAA
1 GAAAA
34949826 ATATTCCTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (42 bp):
GAAAATAGTTCCCTAACTCTAATAAACTACTAAAAGATAAAA
Found at i:34949846 original size:43 final size:41
Alignment explanation
Indices: 34949738--34949847 Score: 96
Period size: 42 Copynumber: 2.6 Consensus size: 41
34949728 CCTAATTGGG
* * * * * *
34949738 AAAATAGTTCCCTTATTCTAATAAACTATTAAAATATAAAAG
1 AAAATAGTT-CCTAAATATAATAAACTACTAAAAGATAAAAA
* *
34949780 AAAATAGTTTCCTAACTCTAATAAACTACTAAAAGATAAAATA
1 AAAATAG-TTCCTAAATATAATAAACTACTAAAAGATAAAA-A
34949823 AAAATA-TTCCTAAAATATGAATAAA
1 AAAATAGTTCCT-AAATAT-AATAAA
34949848 ACTTATCTAC
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
41 5 0.09
42 38 0.67
43 14 0.25
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.30
Consensus pattern (41 bp):
AAAATAGTTCCTAAATATAATAAACTACTAAAAGATAAAAA
Found at i:34949872 original size:19 final size:18
Alignment explanation
Indices: 34949850--34949889 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
34949840 TGAATAAAAC
34949850 TTATCTACCTAAATAATAT
1 TTATCTACCTAAATAA-AT
34949869 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
34949887 TTA
1 TTA
34949890 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:34953053 original size:21 final size:23
Alignment explanation
Indices: 34953029--34953074 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
34953019 TAATGATAAA
*
34953029 TATTTTAAT-GTA-AAATATTAT
1 TATTTTAATAGTATAAACATTAT
34953050 TATTTTAATAGTATAAACATTAT
1 TATTTTAATAGTATAAACATTAT
34953073 TA
1 TA
34953075 AAAATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 3 0.14
23 10 0.45
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (23 bp):
TATTTTAATAGTATAAACATTAT
Found at i:34955121 original size:16 final size:16
Alignment explanation
Indices: 34955100--34955136 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
34955090 TAAGGAAAAA
34955100 ATAGTGTTG-AAGCAAC
1 ATAGTGTTGCAAGC-AC
34955116 ATAGTGTTGCAAGCAC
1 ATAGTGTTGCAAGCAC
34955132 ATAGT
1 ATAGT
34955137 TAAGCAACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (16 bp):
ATAGTGTTGCAAGCAC
Found at i:34959703 original size:38 final size:38
Alignment explanation
Indices: 34959647--34959726 Score: 151
Period size: 38 Copynumber: 2.1 Consensus size: 38
34959637 TTATTCGAGA
34959647 AGTAAGGACCATTGTAAAAATTTTCAAAATCTAACTTG
1 AGTAAGGACCATTGTAAAAATTTTCAAAATCTAACTTG
*
34959685 AGTAAGGACCATTTTAAAAATTTTCAAAATCTAACTTG
1 AGTAAGGACCATTGTAAAAATTTTCAAAATCTAACTTG
34959723 AGTA
1 AGTA
34959727 TCAATATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (38 bp):
AGTAAGGACCATTGTAAAAATTTTCAAAATCTAACTTG
Found at i:34959875 original size:14 final size:14
Alignment explanation
Indices: 34959845--34959881 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
34959835 TATTTTCCGA
34959845 AAAATGATTTCTGG
1 AAAATGATTTCTGG
34959859 AAAATGATTTACT-G
1 AAAATGATTT-CTGG
34959873 AAAAT-ATTT
1 AAAATGATTT
34959882 TATGATGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 16 0.73
15 2 0.09
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:34959994 original size:20 final size:20
Alignment explanation
Indices: 34959969--34960007 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
34959959 GTTTTTACAT
34959969 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
34959989 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
34960008 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:34963938 original size:49 final size:49
Alignment explanation
Indices: 34963876--34964004 Score: 125
Period size: 49 Copynumber: 2.6 Consensus size: 49
34963866 TGCATATTTT
* * ** *
34963876 CACAGCTCGTACATTACTACAGCTCACACATTACATAGATTGCACATTA
1 CACAACTCGTACATTACTACAGCTCACACATTACACAGATCACACATCA
* * ** *
34963925 CACAACTCGTACATCATTGTAGCTCACACATTACACAGCTCACACATCA
1 CACAACTCGTACATTACTACAGCTCACACATTACACAGATCACACATCA
* * *
34963974 CTATAACTCGCAAATTAC-ACAGCTCACACAT
1 C-ACAACTCGTACATTACTACAGCTCACACAT
34964005 CATTATGACT
Statistics
Matches: 62, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
49 51 0.82
50 11 0.18
ACGTcount: A:0.36, C:0.32, G:0.09, T:0.24
Consensus pattern (49 bp):
CACAACTCGTACATTACTACAGCTCACACATTACACAGATCACACATCA
Found at i:34963972 original size:33 final size:33
Alignment explanation
Indices: 34963918--34964022 Score: 120
Period size: 33 Copynumber: 3.2 Consensus size: 33
34963908 ACATAGATTG
* ** * *
34963918 CACATTACACAACTCGTACATCATTGTAGCTCA
1 CACATTACACAGCTCACACATCATTATAACTCA
* *
34963951 CACATTACACAGCTCACACATCACTATAACTCG
1 CACATTACACAGCTCACACATCATTATAACTCA
* * *
34963984 CAAATTACACAGCTCACACATCATTATGACTCG
1 CACATTACACAGCTCACACATCATTATAACTCA
34964017 CACATT
1 CACATT
34964023 GATATATACA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.35, C:0.32, G:0.08, T:0.25
Consensus pattern (33 bp):
CACATTACACAGCTCACACATCATTATAACTCA
Found at i:34964021 original size:66 final size:66
Alignment explanation
Indices: 34963879--34964022 Score: 159
Period size: 66 Copynumber: 2.2 Consensus size: 66
34963869 ATATTTTCAC
* * * * ** *
34963879 AGCTCGTACATTACTACAGCTCACACATTACATAGATTGCACATTACACAACTCGTACATCATTG
1 AGCTCGCACATTACTACAGCTCACACATCACATAGATCGCAAATTACACAACTCACACATCATTA
34963944 T
66 T
* *
34963945 AGCTCACACATTAC-ACAGCTCACACATCACTATA-ACTCGCAAATTACACAGCTCACACATCAT
1 AGCTCGCACATTACTACAGCTCACACATCAC-ATAGA-TCGCAAATTACACAACTCACACATCAT
34964008 TAT
64 TAT
34964011 -GACTCGCACATT
1 AG-CTCGCACATT
34964023 GATATATACA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
65 17 0.26
66 48 0.74
ACGTcount: A:0.35, C:0.31, G:0.09, T:0.26
Consensus pattern (66 bp):
AGCTCGCACATTACTACAGCTCACACATCACATAGATCGCAAATTACACAACTCACACATCATTA
T
Found at i:34969580 original size:25 final size:25
Alignment explanation
Indices: 34969529--34969612 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 25
34969519 CAGCTCTTAT
** * * *
34969529 GAGCTTACTGTTATTCAGTTTGAAG
1 GAGCTTACCATTATTCAGCTCGGAG
*
34969554 GACCTTACCATTATTCAGCTCGGAG
1 GAGCTTACCATTATTCAGCTCGGAG
* *
34969579 GAGCTTACCATTATTTAGCTTGGAG
1 GAGCTTACCATTATTCAGCTCGGAG
34969604 GAGCTTACC
1 GAGCTTACC
34969613 GTTTATAGCT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (25 bp):
GAGCTTACCATTATTCAGCTCGGAG
Found at i:34970713 original size:56 final size:56
Alignment explanation
Indices: 34970621--34970756 Score: 150
Period size: 56 Copynumber: 2.4 Consensus size: 56
34970611 CTTTTAAAGA
* * **
34970621 ACACAAGTCAGTATGCTTACACAGCTTAGCACACGGGCATGT-GACTTGG-TCGTGTG
1 ACACAAGTCAGTATACTCACATGGCTTAGCACACGGGCATGTAG-CTTGGCT-GTGTG
* * * * *
34970677 ACCCAAGTCAGTATACTCACATGGCTTAGTATACGGGCGTGTAGCTTGGCTGTGTT
1 ACACAAGTCAGTATACTCACATGGCTTAGCACACGGGCATGTAGCTTGGCTGTGTG
*
34970733 TCACAAGTCAGTATACTCACATGG
1 ACACAAGTCAGTATACTCACATGG
34970757 GCACGGACAC
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
56 65 0.97
57 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (56 bp):
ACACAAGTCAGTATACTCACATGGCTTAGCACACGGGCATGTAGCTTGGCTGTGTG
Found at i:34974761 original size:27 final size:27
Alignment explanation
Indices: 34974731--34974886 Score: 136
Period size: 27 Copynumber: 5.7 Consensus size: 27
34974721 TGCTATTCAC
*
34974731 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAACTCGCACACTTAGTGCCACATAA
* * * *
34974758 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAACTCGCACACTTAGTGCCACATAA
* * * **
34974785 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ACTCGCACACTTAGTGCCACATAA
*
34974813 TCAACTCGCACACTTAGTG-CATCATAT
1 TCAACTCGCACACTTAGTGCCA-CATAA
*** *
34974840 TCTTTTCGCACACTTAGTGCAACATAA
1 TCAACTCGCACACTTAGTGCCACATAA
34974867 TCGAA-TCGCACACTTAGTGC
1 TC-AACTCGCACACTTAGTGC
34974887 TATACAATTT
Statistics
Matches: 102, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 79 0.77
28 22 0.22
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAACTCGCACACTTAGTGCCACATAA
Found at i:34974849 original size:82 final size:81
Alignment explanation
Indices: 34974731--34974886 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
34974721 TGCTATTCAC
* * * * *
34974731 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTACATAGTTAGATTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATA-ATAGAATCGCA
34974796 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* *** *
34974813 TCAACTCGCACACTTAGTG-CATCATATTCTTTTCGCACACTTAGTGCAACATAATCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAATAGAATCGCA
34974877 CACTTAGTGC
65 CACTTAGTGC
34974887 TATACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 20 0.32
82 43 0.68
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAATAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34974900 original size:27 final size:26
Alignment explanation
Indices: 34974818--34974900 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 26
34974808 CATGGTCAAC
**
34974818 TCGCACACTTAGTGCAT-CATATTCTTT
1 TCGCACACTTAGTGCATACA-ATT-TAA
**
34974845 TCGCACACTTAGTGCA-ACATAATCGAA
1 TCGCACACTTAGTGCATAC--AATTTAA
34974872 TCGCACACTTAGTGCTATACAATTTAA
1 TCGCACACTTAGTGC-ATACAATTTAA
34974899 TC
1 TC
34974901 CCGCGCACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
27 39 0.87
28 3 0.07
29 3 0.07
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (26 bp):
TCGCACACTTAGTGCATACAATTTAA
Found at i:34980268 original size:20 final size:22
Alignment explanation
Indices: 34980245--34980284 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
34980235 ATATGCTTTG
34980245 ATTGAATTA-AAT-ATATATTA
1 ATTGAATTATAATCATATATTA
*
34980265 ATTGTATTATAATCATATAT
1 ATTGAATTATAATCATATAT
34980285 GATTACCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (22 bp):
ATTGAATTATAATCATATATTA
Found at i:34980443 original size:25 final size:25
Alignment explanation
Indices: 34980397--34980479 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
34980387 TCCCTCTTGT
* * *
34980397 GAGCTTACCGA-TACTCAGCTCGTAT
1 GAGCTTACC-ATTATTCAGCTCGAAG
* * *
34980422 GAGCTTTCCATTATTCATCTCGGAG
1 GAGCTTACCATTATTCAGCTCGAAG
34980447 GAGCTTACCATTATTCAGCTCGAAG
1 GAGCTTACCATTATTCAGCTCGAAG
34980472 GAGCTTAC
1 GAGCTTAC
34980480 TGTTTATAGC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 1 0.02
25 48 0.98
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (25 bp):
GAGCTTACCATTATTCAGCTCGAAG
Found at i:34983872 original size:54 final size:54
Alignment explanation
Indices: 34983775--34983918 Score: 227
Period size: 54 Copynumber: 2.6 Consensus size: 54
34983765 GGAGGAAGCA
* *
34983775 TCCTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATTTG
1 TCCTGGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATCTG
34983830 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
* *
34983884 TTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 TCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
34983919 ACTTCGTCAC
Statistics
Matches: 84, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
53 6 0.07
54 58 0.69
55 20 0.24
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
Found at i:34983914 original size:32 final size:27
Alignment explanation
Indices: 34983777--34983918 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
34983767 AGGAAGCATC
* * *
34983777 CTGGTGGCTATGCCACAATTTATCTAAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
34983805 CTGGTGGCTCTGCCACATATATTTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
*
34983831 CCTGGTGGCTATGCCACA-ATTATCTGAT
1 -CTGGTGGCTCTGCCACATA-TATCTGAT
*
34983859 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
34983886 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
34983913 CTGGTG
1 CTGGTG
34983919 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
26 9 0.09
27 74 0.74
28 17 0.17
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:34983915 original size:27 final size:27
Alignment explanation
Indices: 34983777--34983936 Score: 168
Period size: 27 Copynumber: 5.9 Consensus size: 27
34983767 AGGAAGCATC
* *
34983777 CTGGTGGCTATGCCACAATTTATCT-AAT
1 CTGGTGGCTCTGCCACAA--TATCTGTAT
* *
34983805 CTGGTGGCTCTGCCACATATATTTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
34983832 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
34983859 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
34983886 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
34983913 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
34983937 GCGGCCTCGC
Statistics
Matches: 114, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.09
27 86 0.75
28 17 0.15
29 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:34983930 original size:81 final size:81
Alignment explanation
Indices: 34983777--34983936 Score: 200
Period size: 81 Copynumber: 2.0 Consensus size: 81
34983767 AGGAAGCATC
* * *
34983777 CTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATTTGTCCTGGTGGCTA
1 CTGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTA
34983842 TGCCACAATTATCTGAT
66 TGCCACAA-TATCTGAT
* ** *
34983859 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
34983922 -TCGTCACAATATCTG
65 AT-GCCACAATATCTG
34983937 GCGGCCTCGC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
80 14 0.21
81 39 0.57
82 15 0.22
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTA
TGCCACAATATCTGAT
Found at i:34986612 original size:15 final size:17
Alignment explanation
Indices: 34986582--34986613 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
34986572 TTGATACTTG
34986582 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
34986599 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
34986614 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:34987592 original size:56 final size:56
Alignment explanation
Indices: 34987525--34987634 Score: 166
Period size: 56 Copynumber: 2.0 Consensus size: 56
34987515 TGCTTACACA
** * *
34987525 GCTTAGCACACGGGCATGTGGCTTGGCTGTGTGACCCAAGTCAGTATACTCACATG
1 GCTTAGCACACGGGCATGTGGCTTGGCCATGTGACACAAGTCAGTATACCCACATG
* *
34987581 GCTTAGCACACGGGCGTGTGGCTTGGCCATGTGTCACAAGTCAGTATACCCACA
1 GCTTAGCACACGGGCATGTGGCTTGGCCATGTGACACAAGTCAGTATACCCACA
34987635 CAGGCACGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (56 bp):
GCTTAGCACACGGGCATGTGGCTTGGCCATGTGACACAAGTCAGTATACCCACATG
Found at i:34990483 original size:9 final size:9
Alignment explanation
Indices: 34990469--34990503 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
34990459 ATAGATTTTC
34990469 CAAACATAA
1 CAAACATAA
34990478 CAAACATAA
1 CAAACATAA
34990487 CAAACACATAA
1 C-AA-ACATAA
34990498 CAAACA
1 CAAACA
34990504 CATTCCAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 13 0.54
10 4 0.17
11 7 0.29
ACGTcount: A:0.66, C:0.26, G:0.00, T:0.09
Consensus pattern (9 bp):
CAAACATAA
Found at i:34990513 original size:11 final size:11
Alignment explanation
Indices: 34990472--34990506 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
34990462 GATTTTCCAA
34990472 ACATAAC-AA-
1 ACATAACAAAC
34990481 ACATAACAAAC
1 ACATAACAAAC
34990492 ACATAACAAAC
1 ACATAACAAAC
34990503 ACAT
1 ACAT
34990507 TCCAAACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 7 0.29
10 2 0.08
11 15 0.62
ACGTcount: A:0.63, C:0.26, G:0.00, T:0.11
Consensus pattern (11 bp):
ACATAACAAAC
Found at i:34991663 original size:24 final size:25
Alignment explanation
Indices: 34991612--34991664 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
34991602 ATATATAGGA
34991612 TTTTTCCTATGCAATTTATCAACTT
1 TTTTTCCTATGCAATTTATCAACTT
34991637 TTTTTCCTATGCAATTTATCAACTT
1 TTTTTCCTATGCAATTTATCAACTT
34991662 TTT
1 TTT
34991665 ACTTAAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.23, C:0.19, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTTTCCTATGCAATTTATCAACTT
Found at i:34994989 original size:32 final size:32
Alignment explanation
Indices: 34994948--34995012 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
34994938 CACCTCAAAG
*
34994948 ATAATTATTCTACCAAGATAGACCACATTCGC
1 ATAATTATTCTACCAAGATAAACCACATTCGC
34994980 ATAATTATTCTACCAAGATAAACCACATTCGC
1 ATAATTATTCTACCAAGATAAACCACATTCGC
34995012 A
1 A
34995013 ACCACCTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.28
Consensus pattern (32 bp):
ATAATTATTCTACCAAGATAAACCACATTCGC
Found at i:34995769 original size:18 final size:19
Alignment explanation
Indices: 34995732--34995777 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
34995722 CTCAAAAAGT
34995732 TATAAAGAAATGAAATAATA
1 TATAAA-AAATGAAATAATA
*
34995752 TATAAAAAATTAAA-AATA
1 TATAAAAAATGAAATAATA
34995770 TA-AAAAAA
1 TATAAAAAA
34995778 ACTCAAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 6 0.24
18 6 0.24
19 7 0.28
20 6 0.24
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (19 bp):
TATAAAAAATGAAATAATA
Found at i:35001873 original size:20 final size:20
Alignment explanation
Indices: 35001850--35001887 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35001840 GTTACACATA
35001850 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
35001870 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
35001888 TAGTTTCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:35005904 original size:24 final size:24
Alignment explanation
Indices: 35005852--35005904 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
35005842 GGCAAACTAG
*
35005852 AATGCAAACGGGGGTCATGAGAAA
1 AATGCAAACGGGGATCATGAGAAA
* *
35005876 AATGCAAACTGGGATCGT-AGAAA
1 AATGCAAACGGGGATCATGAGAAA
35005899 AGATGC
1 A-ATGC
35005905 GAGCTGTCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.42, C:0.13, G:0.30, T:0.15
Consensus pattern (24 bp):
AATGCAAACGGGGATCATGAGAAA
Found at i:35005986 original size:13 final size:14
Alignment explanation
Indices: 35005968--35005996 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
35005958 TGTGTGTAAG
35005968 TTATGTTTT-CAGA
1 TTATGTTTTCCAGA
35005981 TTATGTTTTCCAGA
1 TTATGTTTTCCAGA
35005995 TT
1 TT
35005997 TTTTAGAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.55
Consensus pattern (14 bp):
TTATGTTTTCCAGA
Found at i:35006389 original size:10 final size:10
Alignment explanation
Indices: 35006374--35006399 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
35006364 TAGTCCATTG
35006374 AAAACAAAGA
1 AAAACAAAGA
35006384 AAAACAAAGA
1 AAAACAAAGA
35006394 AAAACA
1 AAAACA
35006400 TAAGTACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.81, C:0.12, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAACAAAGA
Found at i:35010135 original size:16 final size:16
Alignment explanation
Indices: 35010114--35010148 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
35010104 AAAAAAATAA
**
35010114 CCCCAAATCGTGAAAT
1 CCCCAAATCACGAAAT
35010130 CCCCAAATCACGAAAT
1 CCCCAAATCACGAAAT
35010146 CCC
1 CCC
35010149 TAAAAACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.40, G:0.09, T:0.14
Consensus pattern (16 bp):
CCCCAAATCACGAAAT
Found at i:35010248 original size:30 final size:30
Alignment explanation
Indices: 35010207--35010266 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
35010197 TCTACATCCT
35010207 TAATCCCTTATTCCCAAATCATGAAATCTC
1 TAATCCCTTATTCCCAAATCATGAAATCTC
* * *
35010237 TAATCCTTTATTCTCAAATCGTGAAATCTC
1 TAATCCCTTATTCCCAAATCATGAAATCTC
35010267 ATAAACTCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (30 bp):
TAATCCCTTATTCCCAAATCATGAAATCTC
Found at i:35012791 original size:170 final size:172
Alignment explanation
Indices: 35012507--35012840 Score: 503
Period size: 170 Copynumber: 2.0 Consensus size: 172
35012497 ACGTAAATGA
* *
35012507 AGCTCGAATGTTGTAATTCTCATTTAGGTACCTGTACCACTCACCATATGGTCATAAGTTCTCTC
1 AGCTCGAATGTTGTAATTCTCATTTAGGTACCTGTACCAATCACCATATGGTCATAAGCTCTCTC
* * *
35012572 ATTTCAATATAAACCATAAATCTCTCGTTAAACCATTTGAAATACTACAGAATATTCAATAGCCC
66 ATTTCAAGACAAACCATAAATCTCCCGTTAAACCATTTGAAATACTACAGAATATTCAATAGCCC
* ** *
35012637 CAAATATGGGATAAAATGTCGATGCCATGTCCCAAACATGGT
131 CAAACATGGGATAAAATACCGACGCCATGTCCCAAACATGGT
*
35012679 AGCTCGAATGTTGTAATTCTTATTTAGGTA-CTGTACCAATCA-CATATGGTCATAAGCTCTCTC
1 AGCTCGAATGTTGTAATTCTCATTTAGGTACCTGTACCAATCACCATATGGTCATAAGCTCTCTC
** * *
35012742 ATTTTGAGACAAACCATAAATCTCCCGTTGAACCATTT-AGAATACTACAGGATATTCAATAGCC
66 ATTTCAAGACAAACCATAAATCTCCCGTTAAACCATTTGA-AATACTACAGAATATTCAATAGCC
*
35012806 CTAAACATGGGATAAAATACCGACGCCATGTCCCA
130 CCAAACATGGGATAAAATACCGACGCCATGTCCCA
35012841 GACCTGGTCT
Statistics
Matches: 146, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
169 1 0.01
170 105 0.72
171 11 0.08
172 29 0.20
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (172 bp):
AGCTCGAATGTTGTAATTCTCATTTAGGTACCTGTACCAATCACCATATGGTCATAAGCTCTCTC
ATTTCAAGACAAACCATAAATCTCCCGTTAAACCATTTGAAATACTACAGAATATTCAATAGCCC
CAAACATGGGATAAAATACCGACGCCATGTCCCAAACATGGT
Found at i:35012982 original size:49 final size:48
Alignment explanation
Indices: 35012864--35013001 Score: 129
Period size: 49 Copynumber: 2.8 Consensus size: 48
35012854 ACTAGCTAGC
* *
35012864 ACATCGAAGCCGATGCCATGTCCCAATCAGGTCTTACACTGACTTCCAT
1 ACATCG-AGGCGATGCCATGTCCCAAACAGGTCTTACACTGACTTCCAT
* * * *
35012913 ACATCGAGGCTGATGTCATGTCCCAAACAGGTCTTTCACTGGC-T-CTT
1 ACATCGAGGC-GATGCCATGTCCCAAACAGGTCTTACACTGACTTCCAT
* *
35012960 ATCTATCG-GTGTCGATGCCATGTTCCAGACAGGTCTTACACT
1 A-C-ATCGAG-G-CGATGCCATGTCCCAAACAGGTCTTACACT
35013002 AACACTCAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
47 3 0.04
48 6 0.08
49 64 0.86
50 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
ACATCGAGGCGATGCCATGTCCCAAACAGGTCTTACACTGACTTCCAT
Found at i:35014810 original size:13 final size:13
Alignment explanation
Indices: 35014788--35014820 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35014778 AAGGGTTTGT
35014788 TTAT-TAAACTAA
1 TTATCTAAACTAA
35014800 TTATCTAAACTAA
1 TTATCTAAACTAA
*
35014813 TTAACTAA
1 TTATCTAA
35014821 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:35017769 original size:7 final size:6
Alignment explanation
Indices: 35017752--35017805 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
35017742 TCAAATTGAC
* *
35017752 ATAAAA ATAAAA ATTAAA AT-AAA AT-AAA AT-AAA ATAAAAA ATTAAGA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT-AAAA A-TAAAA
35017799 ATAAAA A
1 ATAAAA A
35017806 AGATAGGAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 15 0.36
6 18 0.43
7 8 0.19
8 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (6 bp):
ATAAAA
Found at i:35017774 original size:5 final size:5
Alignment explanation
Indices: 35017755--35017790 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
35017745 AATTGACATA
35017755 AAAAT AAAAATT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAA-T AAAAT AAAAT AAAAT AAAAT AAAA
35017791 AATTAAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 20 0.69
6 8 0.28
7 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:35017805 original size:15 final size:14
Alignment explanation
Indices: 35017760--35017806 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
35017750 ACATAAAAAT
35017760 AAAAATTAAAATAA
1 AAAAATTAAAATAA
*
35017774 AATAAAATAAAAT-A
1 AA-AAATTAAAATAA
35017788 AAAAATTAAGAATAA
1 AAAAATTAA-AATAA
35017803 AAAA
1 AAAA
35017807 GATAGGAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 6 0.21
14 8 0.29
15 14 0.50
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAAATTAAAATAA
Found at i:35022976 original size:13 final size:13
Alignment explanation
Indices: 35022954--35022986 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35022944 AAGGGTTTGC
35022954 TTAT-TAAACTAA
1 TTATCTAAACTAA
35022966 TTATCTAAACTAA
1 TTATCTAAACTAA
*
35022979 TTAACTAA
1 TTATCTAA
35022987 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:35024474 original size:16 final size:16
Alignment explanation
Indices: 35024439--35024477 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
35024429 GTAGATCAGC
**
35024439 AAAAGCCAAAATGCTG
1 AAAAGCCAAAATGCCA
*
35024455 AAAAGTCAAAATGCCA
1 AAAAGCCAAAATGCCA
35024471 AAAAGCC
1 AAAAGCC
35024478 GAAAGTTTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.21, G:0.15, T:0.10
Consensus pattern (16 bp):
AAAAGCCAAAATGCCA
Found at i:35024776 original size:28 final size:28
Alignment explanation
Indices: 35024694--35024783 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 28
35024684 TGATCTTGAC
*
35024694 TATAAATGTGAATTGGGCCT-GATGAGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
35024723 TATAAATGTGATTTGGGCCTACTGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
*
35024752 TATAAATGTGATTGGGCCTAGTGGGTCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
35024780 TATA
1 TATA
35024784 TAGGTATGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
28 20 0.36
29 35 0.64
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:35026203 original size:46 final size:45
Alignment explanation
Indices: 35026111--35026227 Score: 130
Period size: 46 Copynumber: 2.6 Consensus size: 45
35026101 AAGGCTGATG
* * *
35026111 CATGTCCCAGACATGTCTTACACTAACTCTCGTCTCAATGCTGATA
1 CATGTCCCAGACATGTCTTACACT-ACGCTCGTCACAATGCCGATA
*
35026157 CATGTCCCAGACATGTCTTACACT-GGCTC-TCACAATGTGGCCGATA
1 CATGTCCCAGACATGTCTTACACTACGCTCGTCACAA--T-GCCGATA
* *
35026203 CATGTCCCAAACATGTCTTCCACTA
1 CATGTCCCAGACATGTCTTACACTA
35026228 GCACACATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
43 5 0.08
44 3 0.05
45 1 0.02
46 52 0.85
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTACGCTCGTCACAATGCCGATA
Found at i:35027934 original size:54 final size:54
Alignment explanation
Indices: 35027867--35027974 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
35027857 AAGGTTGTAG
35027867 GCTCAAAATGTGACAAAATGACATTCACCCTTGGCAACTATTTTTTCAATGATT
1 GCTCAAAATGTGACAAAATGACATTCACCCTTGGCAACTATTTTTTCAATGATT
35027921 GCTCAAAATGTGACAAAATGACATTCACCCTTGGCAACTATTTTTTCAATGATT
1 GCTCAAAATGTGACAAAATGACATTCACCCTTGGCAACTATTTTTTCAATGATT
35027975 TACTCATGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (54 bp):
GCTCAAAATGTGACAAAATGACATTCACCCTTGGCAACTATTTTTTCAATGATT
Found at i:35040966 original size:3 final size:3
Alignment explanation
Indices: 35040958--35040983 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
35040948 TGTAGACTGC
35040958 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
35040984 GTCAATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:35043257 original size:19 final size:20
Alignment explanation
Indices: 35043212--35043250 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
35043202 AGGGGTGGTA
*
35043212 AATTTTTTTAATATTAATAT
1 AATTATTTTAATATTAATAT
35043232 AATTATTTTAA-ATTAATAT
1 AATTATTTTAATATTAATAT
35043251 TAATATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTATTTTAATATTAATAT
Found at i:35043268 original size:25 final size:25
Alignment explanation
Indices: 35043219--35043268 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
35043209 GTAAATTTTT
* *
35043219 TTAATATTAATATAATTATTTTAAA
1 TTAATATTAATATAATAATTATAAA
35043244 TTAATATTAATATTAA-AATTATAAA
1 TTAATATTAATA-TAATAATTATAAA
35043269 AACAGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTAATATTAATATAATAATTATAAA
Found at i:35043990 original size:55 final size:55
Alignment explanation
Indices: 35043929--35044034 Score: 212
Period size: 55 Copynumber: 1.9 Consensus size: 55
35043919 ACATAAAATC
35043929 AGAATTTTTGTACTTCATTTCATTAGAGTTTTTTTCTATTACACTACAACCAATT
1 AGAATTTTTGTACTTCATTTCATTAGAGTTTTTTTCTATTACACTACAACCAATT
35043984 AGAATTTTTGTACTTCATTTCATTAGAGTTTTTTTCTATTACACTACAACC
1 AGAATTTTTGTACTTCATTTCATTAGAGTTTTTTTCTATTACACTACAACC
35044035 TTGGTTGATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (55 bp):
AGAATTTTTGTACTTCATTTCATTAGAGTTTTTTTCTATTACACTACAACCAATT
Found at i:35045674 original size:23 final size:23
Alignment explanation
Indices: 35045611--35045681 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
35045601 AATCACTAAT
**
35045611 TTGCACC-AAAGTGCCACCGTCAA
1 TTGCACCGAAA-TGCCACTTTCAA
* * *
35045634 TTGCACTGGAGTGCCACTTTCAA
1 TTGCACCGAAATGCCACTTTCAA
35045657 TTGCACCGAAATGCCACTTTCAA
1 TTGCACCGAAATGCCACTTTCAA
35045680 TT
1 TT
35045682 TACGCGTTGA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 38 0.97
24 1 0.03
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (23 bp):
TTGCACCGAAATGCCACTTTCAA
Found at i:35050848 original size:11 final size:10
Alignment explanation
Indices: 35050811--35050840 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
35050801 ACTTAAGATA
35050811 ATAAAAACTAT
1 ATAAAAAC-AT
35050822 ATAAAAACAT
1 ATAAAAACAT
35050832 ATAAAAACA
1 ATAAAAACA
35050841 CTCTAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.58
11 8 0.42
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (10 bp):
ATAAAAACAT
Found at i:35051006 original size:24 final size:24
Alignment explanation
Indices: 35050978--35051025 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
35050968 AATACCTACT
35050978 AGCATATATGTTCATTAATCACCA
1 AGCATATATGTTCATTAATCACCA
*
35051002 AGCATATATGTTCATTAATTACCA
1 AGCATATATGTTCATTAATCACCA
35051026 TACTCTCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (24 bp):
AGCATATATGTTCATTAATCACCA
Found at i:35051950 original size:11 final size:11
Alignment explanation
Indices: 35051928--35051976 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 11
35051918 ATTTACTTTA
35051928 ATTAATTAAAAT
1 ATTAA-TAAAAT
35051940 ATTAATAAAATAT
1 ATTAAT-AAA-AT
35051953 ATTTAATAAAAT
1 A-TTAATAAAAT
*
35051965 ATTACTAAAAT
1 ATTAATAAAAT
35051976 A
1 A
35051977 ATATTAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
11 11 0.33
12 11 0.33
13 6 0.18
14 5 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (11 bp):
ATTAATAAAAT
Found at i:35051960 original size:14 final size:13
Alignment explanation
Indices: 35051928--35051983 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 13
35051918 ATTTACTTTA
*
35051928 ATTAATTAAA-AT
1 ATTAATAAAATAT
35051940 ATTAATAAAATAT
1 ATTAATAAAATAT
35051953 ATTTAAT-AAA-AT
1 A-TTAATAAAATAT
*
35051965 ATTACTAAAATAAT
1 ATTAATAAAAT-AT
35051979 ATTAA
1 ATTAA
35051984 ATAATTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 4 0.11
12 15 0.42
13 6 0.17
14 11 0.31
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
ATTAATAAAATAT
Found at i:35051964 original size:25 final size:26
Alignment explanation
Indices: 35051929--35051987 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
35051919 TTTACTTTAA
35051929 TTAATTAAAATATTAATAAAAT-ATAT
1 TTAA-TAAAATATTAATAAAATAATAT
*
35051955 TTAATAAAATATTACTAAAATAATAT
1 TTAATAAAATATTAATAAAATAATAT
*
35051981 TAAATAA
1 TTAATAA
35051988 TTTTATCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 16 0.53
26 14 0.47
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
TTAATAAAATATTAATAAAATAATAT
Found at i:35053544 original size:47 final size:47
Alignment explanation
Indices: 35053478--35053610 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 47
35053468 CACATTATAA
*
35053478 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATCGAGA-C-
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT-GAGATCT
* *
35053524 GAGTGCTAGTGTAAGA-CATGTTTGGGACATGGCATCGCCATGAGATCT
1 GA--GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATGAGATCT
* * *
35053572 GAGCTAGTTTAAGACCGTGTCTGGGACATGGCACCGACA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACA
35053611 CCTTACCCAC
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
46 17 0.23
47 44 0.59
48 13 0.18
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATGAGATCT
Found at i:35061069 original size:47 final size:46
Alignment explanation
Indices: 35060959--35061229 Score: 191
Period size: 47 Copynumber: 5.8 Consensus size: 46
35060949 GTTATTGTGG
* * * *
35060959 GCTAGTGTAAGACATGTCAGGGACAT-GCATC--AATCGCATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATCG-A-GACGA-A
* * * *
35061005 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCAAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATCGAGACGA-A
* * * *
35061053 GCTAGTGTAAGACATGTCTGGGACAT-GCATTGGCCTTGAGACTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATCGAGAC-GAA
* *
35061099 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGGC-TACGAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCAT-CGAGACGA-A
* * *
35061145 G-TCAGTGTAAGACCATGTCTGGGACATGGCATTGACAT-GAGA-TATGA
1 GCT-AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATCGAGACGA--A
* *
35061192 GCTAGTGTAAGACAGTGTCTGGGACACGGCATCAGCAT
1 GCTAGTGTAAGACA-TGTCTGGGACATGGCATCGGCAT
35061230 TTTACCCACG
Statistics
Matches: 181, Mismatches: 30, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
45 2 0.01
46 73 0.40
47 74 0.41
48 27 0.15
49 2 0.01
50 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATCGAGACGAA
Found at i:35061115 original size:46 final size:44
Alignment explanation
Indices: 35061056--35061217 Score: 180
Period size: 46 Copynumber: 3.5 Consensus size: 44
35061046 GACGAGTGCT
35061056 AGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAGACTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGG-CTTGAGA-TTAAGCC
* * * *
35061102 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCT-TGAGATTA-AGCC
* * * *
35061148 AGTGTAAGACCATGTCTGGGACATGGCATTGACATGAGATATGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTTGAGAT-TAAGCC
35061195 AGTGTAAGACAGTGTCTGGGACA
1 AGTGTAAGACA-TGTCTGGGACA
35061218 CGGCATCAGC
Statistics
Matches: 98, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
45 4 0.04
46 47 0.48
47 41 0.42
48 6 0.06
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCTTGAGATTAAGCC
Found at i:35061214 original size:140 final size:140
Alignment explanation
Indices: 35060962--35061217 Score: 340
Period size: 140 Copynumber: 1.8 Consensus size: 140
35060952 ATTGTGGGCT
* *
35060962 AGTGTAAGACATGTCAGGGACATGCATCAATCGCATTATGAGAGCCAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCAGGGACATGCATCAATCGCATGATGAGAGCCAGTGTAAGACCATGTCTGG
* *
35061027 GACATGGCATCGGCATCAAGACGAGTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGA
66 GACATGGCATCGACATCAAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGA
35061092 GACTTAAGCC
131 GACTTAAGCC
* ** * *
35061102 AGTGTAAGACATGTCTGGGACATGCATCGGCTACG-A-GATGATAGTCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCAGGGACATGCATC-AAT-CGCATGATGAGAGCCAGTGTAAGACCATGTCT
* * *
35061165 GGGACATGGCATTGACAT-GAGA-TATGAGCTAGTGTAAGACAGTGTCTGGGACA
64 GGGACATGGCATCGACATCAAGACGA-GAGCTAGTGTAAGACA-TGTCTGGGACA
35061218 CGGCATCAGC
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
138 1 0.01
139 18 0.18
140 77 0.77
141 2 0.02
142 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCAGGGACATGCATCAATCGCATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATCAAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGA
GACTTAAGCC
Found at i:35062321 original size:21 final size:21
Alignment explanation
Indices: 35062297--35062344 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
35062287 TTGAAAAGGC
35062297 ACACGGGCGTGTTGCCCTTCT
1 ACACGGGCGTGTTGCCCTTCT
** * *
35062318 ACACAAGCGTGTTGCTCTTTT
1 ACACGGGCGTGTTGCCCTTCT
35062339 ACACGG
1 ACACGG
35062345 TGAGTGCCCT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.29, G:0.25, T:0.29
Consensus pattern (21 bp):
ACACGGGCGTGTTGCCCTTCT
Found at i:35067315 original size:31 final size:31
Alignment explanation
Indices: 35067273--35067336 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
35067263 CCTTTTCATA
*
35067273 TTTCATTTTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
35067304 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
35067335 TT
1 TT
35067337 ATTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:35067609 original size:23 final size:23
Alignment explanation
Indices: 35067551--35067669 Score: 184
Period size: 23 Copynumber: 5.1 Consensus size: 23
35067541 CCTAGCCTCT
* *
35067551 TTTAATAACTGGGGCAAAAGTCCT
1 TTTAATAACTGGGGCATAAG-CCC
*
35067575 TTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
35067598 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
35067621 TTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
35067644 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
35067667 TTT
1 TTT
35067670 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
23 69 0.79
24 18 0.21
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:35067745 original size:20 final size:20
Alignment explanation
Indices: 35067720--35067786 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
35067710 TTATGATTAC
35067720 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
35067740 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
35067760 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
35067780 ACCATGT
1 ATCATGT
35067787 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:35067751 original size:11 final size:11
Alignment explanation
Indices: 35067720--35067775 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
35067710 TTATGATTAC
35067720 ATCATGTGCAT
1 ATCATGTGCAT
*
35067731 ATCA--TACAT
1 ATCATGTGCAT
35067740 ATCATGTGCAT
1 ATCATGTGCAT
*
35067751 ATCA--TACAT
1 ATCATGTGCAT
*
35067760 GTCATGTGCAT
1 ATCATGTGCAT
35067771 ATCAT
1 ATCAT
35067776 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:35067869 original size:25 final size:25
Alignment explanation
Indices: 35067823--35067870 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
35067813 ATACATAAAC
* *
35067823 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
* *
35067848 CCTAGGGGCAAAATTGTTATTTT
1 CCTAGGGGCAAAATGGTCATTTT
35067871 CATGTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:35069094 original size:27 final size:27
Alignment explanation
Indices: 35069029--35069096 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
35069019 GGGCATATTC
*
35069029 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
35069056 GTCATTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCCTACAGGGG-TATTACG
*
35069083 GTCACTTTACCCTA
1 GTCATTTTACCCTA
35069097 ATAGGGGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:35069261 original size:27 final size:27
Alignment explanation
Indices: 35069125--35069363 Score: 185
Period size: 27 Copynumber: 8.8 Consensus size: 27
35069115 TTTCATCCTA
* * ** *
35069125 CAAGGGTGTTTTGGTAAATCAACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** ** *
35069152 CAAAGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
35069179 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-T
* * **
35069208 CAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
35069235 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * * *
35069262 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
35069289 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
35069315 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
*
35069343 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
35069364 GTAAATTGAG
Statistics
Matches: 168, Mismatches: 38, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 139 0.83
28 15 0.09
29 13 0.08
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:35069296 original size:54 final size:54
Alignment explanation
Indices: 35069238--35069377 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 54
35069228 TGTAAATCAG
35069238 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
* * *
35069292 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAA
* **
35069346 GGGTATTTTAGTAATTTTGTAAATTGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
35069378 AAATAGTAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
53 1 0.01
54 75 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
Found at i:35069377 original size:81 final size:81
Alignment explanation
Indices: 35069208--35069362 Score: 215
Period size: 81 Copynumber: 1.9 Consensus size: 81
35069198 TTTAGAAAGT
* * ***
35069208 CAAGGGTATTTTTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
1 CAAGGGTATTTTGGTAACTTTGTAAAACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
35069273 CGGTAATTTCACAAAC
66 CAGTAATTTCACAAAC
35069289 CAAGGGTATTTTGGTAA-TTT-TACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTAT
1 CAAGGGTATTTTGGTAACTTTGTA-AAAC-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTAT
*
35069352 TTTAGTAATTT
64 TTCAGTAATTT
35069363 TGTAAATTGA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 2 0.03
80 6 0.09
81 57 0.88
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAACTTTGTAAAACAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
CAGTAATTTCACAAAC
Found at i:35069384 original size:27 final size:27
Alignment explanation
Indices: 35069354--35069488 Score: 148
Period size: 27 Copynumber: 5.0 Consensus size: 27
35069344 AAGGGTATTT
* *
35069354 TAGTAATTTTGTAAATTGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
35069381 TAGTAATTATATAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
35069408 TAGTAATTCTATAAATCGACGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
35069435 T-GATAATTTTGTAAATCGAGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* *
35069462 -CGATAATTCTGTAAGTCGAGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
35069489 CGGGGTAAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 93 0.99
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:35069387 original size:54 final size:54
Alignment explanation
Indices: 35069238--35069444 Score: 175
Period size: 54 Copynumber: 3.8 Consensus size: 54
35069228 TGTAAATCAG
* ** *
35069238 GGGTATTTTGGTAATTTTACAAATTGAGGGT-ATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATTGAGGGTAAAAT-GGTAATTTTACAAACCAA
* * ***
35069292 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTACAAATTGA-GGGTAAAATGGTAATTTTACAAACCAA
** * * * *
35069346 GGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAATAGTAATTATATAAATCAA
1 GGGTATTTTAGTAATTTTACAAATTGAGGGTAAAATGGTAATTTTACAAACCAA
*** * * * * *
35069400 GGGTAAAATAGTAATTCTATAAATCGACGGTAAAATGATAATTTT
1 GGGTATTTTAGTAATTTTACAAATTGAGGGTAAAATGGTAATTTT
35069445 GTAAATCGAG
Statistics
Matches: 126, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 121 0.96
55 4 0.03
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.37
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAATTGAGGGTAAAATGGTAATTTTACAAACCAA
Found at i:35069496 original size:37 final size:38
Alignment explanation
Indices: 35069445--35069525 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 38
35069435 TGATAATTTT
* ** *
35069445 GTAAATCGAGGGTAAAACGATAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAACGATAATTAAGTAAATCGAGG
* *
35069483 GTAAAACG-GGGTAAAATGATAATTAAGTAAATCGGGG
1 GTAAAACGAGGGTAAAACGATAATTAAGTAAATCGAGG
35069520 GTAAAA
1 GTAAAA
35069526 TGGTAATTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 30 0.81
38 7 0.19
ACGTcount: A:0.42, C:0.07, G:0.28, T:0.22
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGATAATTAAGTAAATCGAGG
Found at i:35069519 original size:26 final size:26
Alignment explanation
Indices: 35069483--35069546 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
35069473 TAAGTCGAGG
*
35069483 GTAAAACGGGGTAAAATGATAATTAA
1 GTAAATCGGGGTAAAATGATAATTAA
* **
35069509 GTAAATCGGGGGTAAAATGGTAATTCT
1 GTAAATC-GGGGTAAAATGATAATTAA
35069536 GTAAATCGGGG
1 GTAAATCGGGG
35069547 GTACTTTGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 10 0.30
27 23 0.70
ACGTcount: A:0.39, C:0.06, G:0.30, T:0.25
Consensus pattern (26 bp):
GTAAATCGGGGTAAAATGATAATTAA
Found at i:35069533 original size:64 final size:64
Alignment explanation
Indices: 35069428--35069549 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
35069418 ATAAATCGAC
** *
35069428 GGTAAAATGATAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAACGG
1 GGTAAAATGATAATTAAGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGG
* * * *
35069492 GGTAAAATGATAATTAAGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCGGGGGTA
1 GGTAAAATGATAATTAAGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
35069550 CTTTGGTAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.39, C:0.07, G:0.28, T:0.27
Consensus pattern (64 bp):
GGTAAAATGATAATTAAGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGG
Found at i:35069560 original size:27 final size:27
Alignment explanation
Indices: 35069490--35069549 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
35069480 AGGGTAAAAC
* **
35069490 GGGGTAAAATGATAATTAAGTAAATCG
1 GGGGTAAAATGGTAATTCTGTAAATCG
35069517 GGGGTAAAATGGTAATTCTGTAAATCG
1 GGGGTAAAATGGTAATTCTGTAAATCG
35069544 GGGGTA
1 GGGGTA
35069550 CTTTGGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.27
Consensus pattern (27 bp):
GGGGTAAAATGGTAATTCTGTAAATCG
Found at i:35069576 original size:27 final size:27
Alignment explanation
Indices: 35069555--35069644 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
35069545 GGGTACTTTG
*
35069555 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
35069582 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
35069609 GTATTTTTACAAA-CTAAGCGTATTTCG
1 GTAATTTTACAAATCGAAG-GTATTTCA
35069636 GTAATTTTA
1 GTAATTTTA
35069645 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:35069596 original size:54 final size:54
Alignment explanation
Indices: 35069538--35069644 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
35069528 GTAATTCTGT
* * *
35069538 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAAG-GTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGCGTATTTCAGTAATTTTAC
* * *
35069592 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGCGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGCGTATTTCAGTAATTTTA
35069645 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGCGTATTTCAGTAATTTTAC
Found at i:35069658 original size:27 final size:27
Alignment explanation
Indices: 35069555--35069659 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
35069545 GGGTACTTTG
* *
35069555 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
35069582 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
35069609 GTATTTTTACAAACTAAGCGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
35069636 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
35069660 CTAAACAGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.03
27 54 0.84
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:35072290 original size:28 final size:28
Alignment explanation
Indices: 35072247--35072325 Score: 124
Period size: 28 Copynumber: 2.9 Consensus size: 28
35072237 TGGGAAGTAG
*
35072247 TTGGGCCTGA-GGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGAGA
* *
35072274 TTGGGCTTGATGGGCCATATGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGAGA
35072302 TTGGGCCTGATGGGCCATATGAAT
1 TTGGGCCTGATGGGCCATATGAAT
35072326 AAGTATGGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 9 0.20
28 37 0.80
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGAGA
Found at i:35072655 original size:27 final size:27
Alignment explanation
Indices: 35072625--35072884 Score: 230
Period size: 27 Copynumber: 9.7 Consensus size: 27
35072615 ATAATAAGAG
35072625 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
35072652 AAATTA-TCGAAATACCCCCGATTTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
*
35072679 AAATTA-TCGAAATACCCTCGA-TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
35072705 AAATTACTGAAAGACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** * *
35072732 AAATTATCAAAAATACCCTTGA-TTGTG
1 AAATTA-CTGAAATACCCTCGATTTGTA
35072759 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
** * *
35072786 AAATTACCAAAATACCC-CTAGTTTGTG
1 AAATTACTGAAATACCCTCGA-TTTGTA
*
35072813 AAATTA-TCGAAACACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * * *
35072840 AAATTATTAAAATACCCTTG-TAGTGTA
1 AAATTACTGAAATACCCTCGAT-TTGTA
*
35072867 AAATTACCGAAATACCCT
1 AAATTACTGAAATACCCT
35072885 TGTAGTGTAA
Statistics
Matches: 189, Mismatches: 32, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
26 37 0.20
27 139 0.74
28 13 0.07
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:35072746 original size:54 final size:53
Alignment explanation
Indices: 35072634--35072884 Score: 306
Period size: 54 Copynumber: 4.7 Consensus size: 53
35072624 GAAATTACTG
* * * *
35072634 AAATACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTGAAATTATCG
1 AAATACCCTCGA-TTGTGAAATTATCGAAATACCCTCGATTTGTAAAATTATCA
* *
35072688 AAATACCCTCGATTGTGAAATTA-CTGAAAGACCCTCAATTTGTAAAATTATCAA
1 AAATACCCTCGATTGTGAAATTATC-GAAATACCCTCGATTTGTAAAATTATC-A
* *
35072742 AAATACCCTTGATTGTGAAATTATCGAAATACCCTCGATTTGTAAAATTACCA
1 AAATACCCTCGATTGTGAAATTATCGAAATACCCTCGATTTGTAAAATTATCA
* * * *
35072795 AAATACCCCTAGTTTGTGAAATTATCGAAACACCCTCGATTTGTAAAATTATTA
1 AAATA-CCCTCGATTGTGAAATTATCGAAATACCCTCGATTTGTAAAATTATCA
* * * *
35072849 AAATACCCTTGTAGTGTAAAATTACCGAAATACCCT
1 AAATACCCTCG-ATTGTGAAATTATCGAAATACCCT
35072885 TGTAGTGTAA
Statistics
Matches: 171, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
52 1 0.01
53 44 0.26
54 125 0.73
55 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.31
Consensus pattern (53 bp):
AAATACCCTCGATTGTGAAATTATCGAAATACCCTCGATTTGTAAAATTATCA
Found at i:35072758 original size:80 final size:81
Alignment explanation
Indices: 35072624--35072857 Score: 276
Period size: 80 Copynumber: 2.9 Consensus size: 81
35072614 CATAATAAGA
* * *
35072624 GAAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTGAAATTATCGA
1 GAAATTACTGAAAGACCCTCAATTTGTAAAATTATCAAAATACCCCCGATTTGTGAAATTATCGA
35072689 AATACCCTCGA-TTGT
66 AATACCCTCGATTTGT
**
35072704 GAAATTACTGAAAGACCCTCAATTTGTAAAATTATCAAAAATACCCTTGA-TTGTGAAATTATCG
1 GAAATTACTGAAAGACCCTCAATTTGTAAAATTATC-AAAATACCCCCGATTTGTGAAATTATCG
35072768 AAATACCCTCGATTTGT
65 AAATACCCTCGATTTGT
* ** * * * * * * * **
35072785 AAAATTACCAAAATACCC-CTAGTTTGTGAAATTATCGAAACACCCTCGATTTGTAAAATTATTA
1 GAAATTACTGAAAGACCCTC-AATTTGTAAAATTATCAAAATACCCCCGATTTGTGAAATTATCG
35072849 AAATACCCT
65 AAATACCCT
35072858 TGTAGTGTAA
Statistics
Matches: 133, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
80 71 0.53
81 62 0.47
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (81 bp):
GAAATTACTGAAAGACCCTCAATTTGTAAAATTATCAAAATACCCCCGATTTGTGAAATTATCGA
AATACCCTCGATTTGT
Found at i:35072820 original size:81 final size:82
Alignment explanation
Indices: 35072625--35072883 Score: 305
Period size: 81 Copynumber: 3.2 Consensus size: 82
35072615 ATAATAAGAG
* * *
35072625 AAATTACTGAAATA-CCCTCGATTTGTAAAATTATCGAAATACCCCCGATTTGTGAAATTATCGA
1 AAATTACCGAAATACCCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTGAAATTATCGA
*
35072689 AATACCCTCGA-TTGTG
66 AATACCCTCGATTTGTA
* * * *
35072705 AAATTACTGAAAGA-CCCTCAATTTGTAAAATTATCAAAAATACCCTTGA-TTGTGAAATTATCG
1 AAATTACCGAAATACCCCTCAATTTGTAAAATTATC-GAAATACCCTCGATTTGTGAAATTATCG
35072768 AAATACCCTCGATTTGTA
65 AAATACCCTCGATTTGTA
* * * * * **
35072786 AAATTACCAAAATACCCCT-AGTTTGTGAAATTATCGAAACACCCTCGATTTGTAAAATTATTAA
1 AAATTACCGAAATACCCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTGAAATTATCGA
* *
35072850 AATACCCTTG-TAGTGTA
66 AATACCCTCGAT-TTGTA
35072867 AAATTACCGAAATACCC
1 AAATTACCGAAATACCC
35072884 TTGTAGTGTA
Statistics
Matches: 154, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
80 70 0.45
81 80 0.52
82 4 0.03
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (82 bp):
AAATTACCGAAATACCCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTGAAATTATCGA
AATACCCTCGATTTGTA
Found at i:35072921 original size:27 final size:27
Alignment explanation
Indices: 35072849--35072927 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
35072839 AAAATTATTA
* * * *
35072849 AAATACCCTTGTAGTGTAAAATTACCG
1 AAATACCCCTATAGGGTAAAATGACCG
* * * *
35072876 AAATACCCTTGTAGTGTAAAATGATCG
1 AAATACCCCTATAGGGTAAAATGACCG
*
35072903 ACATACCCCTATAGGGTAAAATGAC
1 AAATACCCCTATAGGGTAAAATGAC
35072928 TGTTTTCCCC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAAAATGACCG
Found at i:35074498 original size:46 final size:46
Alignment explanation
Indices: 35074416--35074583 Score: 139
Period size: 46 Copynumber: 3.7 Consensus size: 46
35074406 GGGTTATTAT
*
35074416 GAGCCAGTGTAAGACCATGTCTAAGACATGACATCGGAATTGAGATGA
1 GAGCCAGTGTAAGACCATGTCTGAGACATG-CATCGG-ATTGAGATGA
* * * * * * *
35074464 GAGCTAGTGTAAGA-CATGTCTGGGAAATGTATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACCATGTCTGAGACATGCATCGG-ATTGAGATG-A
*
35074511 -AGCCAGTGTAAGA-CATGTCTGAGACATGCATCGGTTATGAGAT--
1 GAGCCAGTGTAAGACCATGTCTGAGACATGCATCGGAT-TGAGATGA
* * * *
35074554 GTGTCAGTGTAAGATCATGTCTGGGACATG
1 GAGCCAGTGTAAGACCATGTCTGAGACATG
35074584 GCTTCGGCAC
Statistics
Matches: 97, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
44 11 0.11
45 15 0.15
46 45 0.46
47 13 0.13
48 13 0.13
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATGTCTGAGACATGCATCGGATTGAGATGA
Found at i:35074727 original size:146 final size:140
Alignment explanation
Indices: 35074414--35074738 Score: 345
Period size: 146 Copynumber: 2.3 Consensus size: 140
35074404 GTGGGTTATT
* ** * *
35074414 ATGAGCCAGTGTAAGACCATGTCTAAGACATGACATCGG-A--ATTGA-GATGAGAGCTAGTGTA
1 ATGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCACGAAT-ATG-TGAGAGCTAGTGTA
*
35074475 AGACATGTCTGGGAAATGTATCGGCCTCGAGACGTAAGCCAGTGTAAGACATGTCTGAGACATGC
64 AAACATGTCTGGGAAATGTATCGGCCTCGAGACGTAAGCCAGTGTAAGACATGTCTGAGACATGC
*
35074540 ATCGGTTATGAG
129 ATCGCTTATGAG
* * * * *
35074552 ATGTGTCAGTGTAAGATCATGTCTGGGACATGGCTTCGGCACGAATATGTGAGAGCTAGTGTAAA
1 ATGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAGAGCTAGTGTAAA
* * * * * *
35074617 ACCATGTCTGGGACATGGTGTCGGCCTCGATGACGTTAGTCAGTGTAAGACCATGTTTGGGACAT
66 A-CATGTCTGGGAAAT-GTATCGGCCTCGA-GACGTAAGCCAGTGTAAGA-CATGTCTGAGACAT
* *
35074682 GGCATTGACTTGA-GAT
127 -GCATCG-CTT-ATGAG
*
35074698 ATGAGCCAGTATAAGACCATGTTTGGGACATGGCATCGGCA
1 ATGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCA
35074739 TTCTACCCCA
Statistics
Matches: 152, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
138 32 0.21
139 1 0.01
140 17 0.11
141 16 0.11
142 12 0.08
143 17 0.11
144 12 0.08
145 5 0.03
146 39 0.26
147 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (140 bp):
ATGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCACGAATATGTGAGAGCTAGTGTAAA
ACATGTCTGGGAAATGTATCGGCCTCGAGACGTAAGCCAGTGTAAGACATGTCTGAGACATGCAT
CGCTTATGAG
Found at i:35077555 original size:545 final size:543
Alignment explanation
Indices: 35076198--35077758 Score: 2777
Period size: 545 Copynumber: 2.9 Consensus size: 543
35076188 TTAGATAAAC
*
35076198 AACATTTGTTAAGTGATTTTTAGTAAAATGTCCAATTAGGGATTAAATTGTGAAATGTATAAATT
1 AACATTTGTTAAGTGATTTTTAGTAAAATGTCCAATTAGGGATTAAATTGTGAAATGTGTAAATT
* *
35076263 TTGTGGGTAAATTGTGAAATAAAT-AAAAATATGGACTAATAGAGACCTAATTGAAATTC-GCTT
66 TTGTGGGTAAATTGTGAAATAAATAAAAAATATGGACTGATAGGGACCTAATTGAAATTCGGC-T
*
35076326 AGCATGGGTTTTGGTTGAATTGCATGGATTTGTAATTTTATGAAATAATGACTAAATTGTAAAAA
130 AGCATGGGTTTTGGTTGAATTGCATGAATTTGTAATTTTATGAAATAATGACTAAATTGTAAAAA
*
35076391 TGTTGAAATGTTAGGGGCAAAAATATAAAATTGCCTTAATGTGTGGTTTGGATTAAATTGAATAG
195 TGTTGAAATGTTAGGGGAAAAAATATAAAATTGCCTTAATGTGTGGTTTGGATTAAATTGAATAG
*
35076456 AGAGATTATTAAATAAGTCAATTTTGATTACGGTTAGATCAAGAAAAGTGAAATTCAGATTTAGA
260 AGAGATTATTAAATAAGTTAATTTTGATTACGGTTAGATCAAGAAAAGTGAAATTCAGATTTAGA
35076521 TCAGGGAAAGAACAAAATATCGGACTAATTGACTTATTTTGTTGTTTTTGCATTCGAGGTAAGTT
325 TCAGGGAAAGAACAAAATATCGGACTAATTGACTTATTTTGTTGTTTTTGCATTCGAGGTAAGTT
* * *
35076586 CATATGTAATAAGCTTTGTTATAATTGTATTTTAAATGTATAATATTGCATAAATTATGAATACG
390 CGTATGTAATAAGCTTTGTTATAATTGTATTTTAAATCTATAATATTGCATAAATTGTGAATACG
*
35076651 ACTCTACGGACATGTTCTATGACAATTCGACAAGTGTGAAATCTCAGTTAAACCTTAGGAATAGA
455 ACTCTACGGACATGTTCTACGACAATTCGACAAGTGTGAAATCTCAGTTAAACCTTAGGAATAGA
35076716 TTAGGATACGAATGACATGTCATT
520 TTAGGATACGAATGACATGTCATT
*
35076740 AACATTT-TTAAGTGATTTTTAGTAAAATGTCCAATTAGGGATTAAATTATGAAATGTGTAAATT
1 AACATTTGTTAAGTGATTTTTAGTAAAATGTCCAATTAGGGATTAAATTGTGAAATGTGTAAATT
*
35076804 TTGTGGGTAAATTGTAAAATAAATAAAAAATATGGACTGATAGGGACCTAATTGAAATTCGGCTA
66 TTGTGGGTAAATTGTGAAATAAATAAAAAATATGGACTGATAGGGACCTAATTGAAATTCGGCTA
35076869 GCATGGGTTTTGGTTGAATTGCATGAATTTGTAATTTTATGAAATAATGACTAAATTGTAAAAAT
131 GCATGGGTTTTGGTTGAATTGCATGAATTTGTAATTTTATGAAATAATGACTAAATTGTAAAAAT
*
35076934 GTTGAAATGTTAGGGGAAAAAATATAAAATTACCTTAATGTGTGGTTTGGATTAAATTGAATAGA
196 GTTGAAATGTTAGGGGAAAAAATATAAAATTGCCTTAATGTGTGGTTTGGATTAAATTGAATAGA
35076999 GAGATTATTAAATAAGTTAATTTTGATTACGGTTAGATCAAGAAAAGTGAAATTCAGATTTAGAT
261 GAGATTATTAAATAAGTTAATTTTGATTACGGTTAGATCAAGAAAAGTGAAATTCAGATTTAGAT
* * * * * *
35077064 AAAGGAAATAACAAAATATCAGACTAATCGACTTATTTTGTTGTTTTTGCATTCGAGGTAAATTC
326 CAGGGAAAGAACAAAATATCGGACTAATTGACTTATTTTGTTGTTTTTGCATTCGAGGTAAGTTC
* *
35077129 GTATGTAATAAGCTTTGTTATAATTGTATTTTAAATACAATAATATTGCATAAATTGTGAATATG
391 GTATGTAATAAGCTTTGTTATAATTGTATTTTAAAT-CTATAATATTGCATAAATTGTGAATACG
* * * * *
35077194 ACTCTATGGGCATGTTCTACGACAATTCGGCAAGTGTGAAATCTCGGTTGAACCTTAGGAATAGA
455 ACTCTACGGACATGTTCTACGACAATTCGACAAGTGTGAAATCTCAGTTAAACCTTAGGAATAGA
35077259 TTAGGATACGAATGACATGTCATT
520 TTAGGATACGAATGACATGTCATT
35077283 AACATTTGTTAAGTGATTTTTAGTAAAATGTCCAATTAGGGATTAAATTGTGAAATGTGTAAATT
1 AACATTTGTTAAGTGATTTTTAGTAAAATGTCCAATTAGGGATTAAATTGTGAAATGTGTAAATT
* *
35077348 TTTTGGGTAAGTTGTGAAATAAATAAAAAAATATGGACTGATAGGGACCTAATTGAAATTCGGCT
66 TTGTGGGTAAATTGTGAAATAAAT-AAAAAATATGGACTGATAGGGACCTAATTGAAATTCGGCT
35077413 AGCATGGGTTTTGGTTGAATTGCATGAATTTGTAATTTTATGAAATAATGACTAAATTGTAAAAA
130 AGCATGGGTTTTGGTTGAATTGCATGAATTTGTAATTTTATGAAATAATGACTAAATTGTAAAAA
35077478 TGTTGAAATGTTAGGGGAAAAAATATAAAATTGCCTTAATGTGTGGTTTGGATTAAATTGAATAG
195 TGTTGAAATGTTAGGGGAAAAAATATAAAATTGCCTTAATGTGTGGTTTGGATTAAATTGAATAG
* * *
35077543 AGAGATTATTAAATAAGTTAATTTTGTTTACGATTAGATCAAGAAAAGTGAAATTCATATTTAGA
260 AGAGATTATTAAATAAGTTAATTTTGATTACGGTTAGATCAAGAAAAGTGAAATTCAGATTTAGA
*
35077608 TCAGGGAAAGAACAAAATATCGGACTAATTGACTTATTTTTTTGTTTTTGCATTCGAGGTAAGTT
325 TCAGGGAAAGAACAAAATATCGGACTAATTGACTTATTTTGTTGTTTTTGCATTCGAGGTAAGTT
35077673 CGTATGTAATAAGCTTTGTTATAATTGTATTTTAAATGCTATAATATTGCATAAATTGTGAATAC
390 CGTATGTAATAAGCTTTGTTATAATTGTATTTTAAAT-CTATAATATTGCATAAATTGTGAATAC
35077738 GACTCTACGGACATGTTCTAC
454 GACTCTACGGACATGTTCTAC
35077759 CGGTGGCTGA
Statistics
Matches: 968, Mismatches: 46, Indels: 7
0.95 0.05 0.01
Matches are distributed among these distances:
541 78 0.08
542 327 0.34
543 116 0.12
544 77 0.08
545 370 0.38
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.36
Consensus pattern (543 bp):
AACATTTGTTAAGTGATTTTTAGTAAAATGTCCAATTAGGGATTAAATTGTGAAATGTGTAAATT
TTGTGGGTAAATTGTGAAATAAATAAAAAATATGGACTGATAGGGACCTAATTGAAATTCGGCTA
GCATGGGTTTTGGTTGAATTGCATGAATTTGTAATTTTATGAAATAATGACTAAATTGTAAAAAT
GTTGAAATGTTAGGGGAAAAAATATAAAATTGCCTTAATGTGTGGTTTGGATTAAATTGAATAGA
GAGATTATTAAATAAGTTAATTTTGATTACGGTTAGATCAAGAAAAGTGAAATTCAGATTTAGAT
CAGGGAAAGAACAAAATATCGGACTAATTGACTTATTTTGTTGTTTTTGCATTCGAGGTAAGTTC
GTATGTAATAAGCTTTGTTATAATTGTATTTTAAATCTATAATATTGCATAAATTGTGAATACGA
CTCTACGGACATGTTCTACGACAATTCGACAAGTGTGAAATCTCAGTTAAACCTTAGGAATAGAT
TAGGATACGAATGACATGTCATT
Found at i:35080507 original size:42 final size:42
Alignment explanation
Indices: 35080386--35080507 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 42
35080376 TACAGTACCA
* * *
35080386 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATGCCAGATATGGTCTTACACGTAATCTCATATCG
35080428 ATGCCA-ATAGCCCA-ACTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCCATAT-G-CCAGA-TATGGTCTTACACGTAA-TCTCATATCG
*
35080471 ATGCCATATGCCAGATATGGTCTTATACGTAATCTCA
1 ATGCCATATGCCAGATATGGTCTTACACGTAATCTCA
35080508 GTAATCCTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
41 2 0.03
42 30 0.43
43 35 0.51
44 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATGCCAGATATGGTCTTACACGTAATCTCATATCG
Found at i:35086738 original size:38 final size:38
Alignment explanation
Indices: 35086687--35086763 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
35086677 TGGTAAGTTA
35086687 AATTCTAAATTATACGAACTTACGAAGATTAAATGCTT
1 AATTCTAAATTATACGAACTTACGAAGATTAAATGCTT
*
35086725 AATTCTAAATTATACGAACTTACTAAGATTAAATGCTT
1 AATTCTAAATTATACGAACTTACGAAGATTAAATGCTT
35086763 A
1 A
35086764 CTCTGTGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (38 bp):
AATTCTAAATTATACGAACTTACGAAGATTAAATGCTT
Found at i:35087707 original size:16 final size:16
Alignment explanation
Indices: 35087686--35087720 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
35087676 TTTTATCAAA
35087686 GTCTAGAGGCAAAATG
1 GTCTAGAGGCAAAATG
35087702 GTCTAGAGGCAAAATG
1 GTCTAGAGGCAAAATG
35087718 GTC
1 GTC
35087721 GTTTTGCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.20
Consensus pattern (16 bp):
GTCTAGAGGCAAAATG
Found at i:35088133 original size:46 final size:45
Alignment explanation
Indices: 35088075--35088429 Score: 154
Period size: 44 Copynumber: 7.6 Consensus size: 45
35088065 TATGTTTGCT
*
35088075 AGTGTAAAACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAGAGCC
* * * *
35088121 AGTGTAAGACATGTCTGGGACATGCAACAGCCTCGAGATAT-ACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-A-TTATGA-GAGCC
* * * * *
35088169 AGCGTAAGACATGTCTGAGACATGCGTCGG--CATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCCATT---ATGAGAGCC
* * * * *
35088215 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATAT-ACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC--CA-TTATGA-GAGCC
* * * * * * *
35088263 AGTGTAAGACCTGTCTAGGACATGGCTTCAG--C-TTGTTGTGTGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCCATT-ATGAGAGCC
* * * * * * *
35088307 AGTGTAAGACCTGTCTAGGACATGGCTTCAG--C-TTGTTGTGTGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCCATT-ATGAGAGCC
* * *
35088351 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCAATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGC-CC-AT-TATGAGAGCC
*
35088400 AGTGTAAGACCTGTCTGGGACATGGCATCG
1 AGTGTAAGACATGTCTGGGACAT-GCATCG
35088430 ATCTCGATAT
Statistics
Matches: 246, Mismatches: 41, Indels: 41
0.75 0.12 0.12
Matches are distributed among these distances:
43 2 0.01
44 75 0.30
45 1 0.00
46 60 0.24
47 5 0.02
48 58 0.24
49 43 0.17
50 1 0.00
51 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGAGCC
Found at i:35088183 original size:48 final size:48
Alignment explanation
Indices: 35088075--35088286 Score: 202
Period size: 46 Copynumber: 4.5 Consensus size: 48
35088065 TATGTTTGCT
* * * *
35088075 AGTGTAAAACATGTCTGGGACATGCATCGGCC---ACATTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGA-TAT-ACAAGCC
* *
35088121 AGTGTAAGACATGTCTGGGACATGCAACAGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCC
* * * * * ** * *
35088169 AGCGTAAGACATGTCTGAGACATGCGTCGGCATTGAGA-CGA-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCC
*
35088215 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCC
* *
35088263 AGTGTAAGACCTGTCTAGGACATG
1 AGTGTAAGACATGTCTGGGACATG
35088287 GCTTCAGCTT
Statistics
Matches: 134, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
46 65 0.49
47 3 0.02
48 64 0.48
49 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCC
Found at i:35088224 original size:94 final size:94
Alignment explanation
Indices: 35088114--35088286 Score: 276
Period size: 94 Copynumber: 1.8 Consensus size: 94
35088104 GCCACATTAT
35088114 GAGAGCCAGTGTAAGACATGTCTGGGACATGCAACAGCCTCGAGATATACAAGCCAGCGTAAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCAACAGCCTCGAGATATACAAGCCAGCGTAAGAC
35088179 ATGTCT-GAGACATGCGTCGGCATTGAGAC
66 ATGTCTAG-GACATGCGTCGGCATTGAGAC
* * * * *
35088208 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCAACAGCCTCGAGATATACAAGCCAGCGTAAGAC
*
35088273 CTGTCTAGGACATG
66 ATGTCTAGGACATG
35088287 GCTTCAGCTT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
94 71 0.99
95 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (94 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGCAACAGCCTCGAGATATACAAGCCAGCGTAAGAC
ATGTCTAGGACATGCGTCGGCATTGAGAC
Found at i:35088320 original size:44 final size:44
Alignment explanation
Indices: 35088263--35088376 Score: 219
Period size: 44 Copynumber: 2.6 Consensus size: 44
35088253 TATACAAGCT
35088263 AGTGTAAGACCTGTCTAGGACATGGCTTCAGCTTGTTGTGTGCC
1 AGTGTAAGACCTGTCTAGGACATGGCTTCAGCTTGTTGTGTGCC
35088307 AGTGTAAGACCTGTCTAGGACATGGCTTCAGCTTGTTGTGTGCC
1 AGTGTAAGACCTGTCTAGGACATGGCTTCAGCTTGTTGTGTGCC
*
35088351 AGTGTAAGACCTGTCTGGGACATGGC
1 AGTGTAAGACCTGTCTAGGACATGGC
35088377 ATCGACACCA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (44 bp):
AGTGTAAGACCTGTCTAGGACATGGCTTCAGCTTGTTGTGTGCC
Done.